Giulia Paiardi: Implementation of an incremental docking method to study long-sugar chains interactions with proteins: p17-heparin case study
16 October 2019
Manno, Galleria 1, 2nd floor, room G1-201 @12:00
Glyco-bioinformatics is an emerging subfield of bioinformatics aimed at expediting research in the field of glycomics. Unfortunately, the development of sugar-based virtual structures is made difficult by some structural features of sugar such as their high charge density, conformational flexibility and the torsional angles between glycosidic bonds. As a consequence, automated prediction of the binding poses of long sugar with proteins (that is a pivotal aspect of many biological processes) has been evaded so far, also due to the solvation/desolvation, weak surface complementarity and large electrostatic interactions of sugar/protein interactions.
My PhD activity is aimed at overcoming these limits. To this aim, I have implemented a new computational method based on incremental docking that has been so far successfully applied to two important biological interactions such as that of heparin with the HIV-1 p17 matrix protein in the field of AIDS and VEGF with its VEGF receptor-2 in the field of tumor neovascularization. Perspective developments include the development of an algorithm able to automatize the developed computational methods and their application to other sugar/protein interactions of biological importance.

The speaker

Giulia Paiardi has completed her MSc in Bioinformatics and medical biotechnology at University of Verona in 2016. She then moved to the University of Brescia where she worked as data analyst on the project "Neuroendocrine and behavioural aspects of experimental autism” at the section of Pharmacology of the Department of Molecular and Translational Medicine (DMMT). She is now frequenting the PhD in Technology for Health at University of Brescia, where under the supervision of Prof. Marco Rusnati, at the Macromolecular Interaction Analysis Unit of the DMMT, she is in charge of all the computational aspects of the projects currently ongoing in the Unit. To this aim, in 2018, under the supervision of Dr.  Pasqualina D’Ursi, she has frequented the Bioinformatics group at the Institute for Biomedical Technologies-National Research Council (ITB-CNR) in Milan, leaded by Prof. Luciano Milanesi, with which she is still in close collaboration and that currently provides her the computing systems.


Pizza and drinks will be offered at the end of the talk. If you plan to attend, please register in a timely fashion (before the day of the talk) at the following link so that we will have no shortage of food: